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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ), 'gf_id' => 'HOM05D001052', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001052' ), 'data_identifier' => 'HOM05D001052', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001052', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '577', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06070' => 'bna', 'A03p09850' => 'bna', 'A03p25030' => 'bna', 'A03p26900' => 'bna', 'A04p33640' => 'bna', 'A10p23530' => 'bna', 'Aa31LG11G14200' => 'aar', 'Aa31LG1G26690' => 'aar', 'Aa31LG5G9120' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.2383' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.3971' => 'aag', 'Actinidia13239' => 'ach', 'Actinidia15779' => 'ach', 'Actinidia17560' => 'ach', 'Actinidia21984' => 'ach', 'Actinidia33481' => 'ach', 'Actinidia40474' => 'ach', 'Ah.09g226250' => 'amhyb', 'Ah.10g031780' => 'amhyb', 'Ah.12g062440' => 'amhyb', 'AL4G19640' => 'aly', 'AL4G44220' => 'aly', 'AL6G26210' => 'aly', 'AL6G31700' => 'aly', 'Aqoxy5G03885' => 'aox', 'Aqoxy7G02188' => 'aox', 'Aqoxy7G03702' => 'aox', 'arahy.Tifrunner.gnm1.ann1.755JPD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.866PCH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86WWGB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E2LUKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE9KP0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M45NW7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1FZ8C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R7Q8VR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S82084' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XH5ZLH' => 'arhy', 'AT2G26660' => 'ath', 'AT2G45130' => 'ath', 'AT5G15330' => 'ath', 'AT5G20150' => 'ath', 'ATR0317G068' => 'atr', 'ATR0317G073' => 'atr', 'ATR0796G184' => 'atr', 'ATR1120G182' => 'atr', 'Atru.chr1.2996' => 'acertr', 'Atru.chr1.2997' => 'acertr', 'Atru.chr5.239' => 'acertr', 'Atru.chr7.1148' => 'acertr', 'Atru.chr7.2414' => 'acertr', 'Atru.chr8.314' => 'acertr', 'AUR62004163' => 'cqu', 'AUR62011134' => 'cqu', 'AUR62012403' => 'cqu', 'AUR62013353' => 'cqu', 'AUR62013661' => 'cqu', 'AUR62018108' => 'cqu', 'AUR62031503' => 'cqu', 'AUR62034440' => 'cqu', 'BcaB01g03024' => 'bca', 'BcaB01g03293' => 'bca', 'BcaB01g04799' => 'bca', 'BcaB01g04800' => 'bca', 'BcaB05g22868' => 'bca', 'BcaC01g05157' => 'bca', 'BcaC03g13736' => 'bca', 'BcaC04g24237' => 'bca', 'BcaC04g24238' => 'bca', 'BcaNung06307' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01770' => 'bna', 'BolC2t07018H' => 'bol', 'BolC3t13617H' => 'bol', 'BolC3t15334H' => 'bol', 'BolC3t15568H' => 'bol', 'BolC4t28647H' => 'bol', 'BolC9t58472H' => 'bol', 'BolC9t59014H' => 'bol', 'BraA02t05558Z' => 'bra', 'BraA03t10300Z' => 'bra', 'BraA03t11706Z' => 'bra', 'BraA03t11901Z' => 'bra', 'BraA04t18828Z' => 'bra', 'BraA10t44419Z' => 'bra', 'C03p11430' => 'bna', 'C03p29870' => 'bna', 'C03p32270' => 'bna', 'C04p71400' => 'bna', 'C09p56050' => 'bna', 'C09p61760' => 'bna', 'CAN.G1410.1' => 'can', 'CAN.G1872.6' => 'can', 'CAN.G206.171' => 'can', 'CAN.G551.90' => 'can', 'CAN.G979.3' => 'can', 'CANSAT11G0979' => 'cansat', 'CANSAT25G0222' => 'cansat', 'CANSAT64G0110' => 'cansat', 'CARHR118550' => 'chi', 'CARHR140360' => 'chi', 'CARHR192680' => 'chi', 'CARHR197960' => 'chi', 'CARHR197970' => 'chi', 'Carub.0004s2772' => 'cru', 'Carub.0006s1352' => 'cru', 'Carub.0006s1853' => 'cru', 'Ca_04849_v3' => 'car', 'Ca_12941_v3' => 'car', 'Ca_15716_v3' => 'car', 'Ca_19574_v3' => 'car', 'Ca_21678_v3' => 'car', 'CBR_g52290' => 'cbr', 'CBR_g55079' => 'cbr', 'Cc02_g24440' => 'ccan', 'Cc06_g08450' => 'ccan', 'Cc07_g03600' => 'ccan', 'Cc08_g00770' => 'ccan', 'CDE03G0184' => 'cde', 'CDE04G0297' => 'cde', 'CDE04G1804' => 'cde', 'CDE04G2593' => 'cde', 'CDE06G0729' => 'cde', 'CDE06G2091' => 'cde', 'Cfa003381' => 'cfa', 'Cfa007584' => 'cfa', 'Cfa011164' => 'cfa', 'Cfa013156' => 'cfa', 'Ciclev10009041m.g' => 'ccl', 'Ciclev10009083m.g' => 'ccl', 'Ciclev10012222m.g' => 'ccl', 'Ciclev10021781m.g' => 'ccl', 'Ciclev10027065m.g' => 'ccl', 'CiPaw.03G024200' => 'cil', 'CiPaw.03G244400' => 'cil', 'CiPaw.04G171300' => 'cil', 'CiPaw.07G222300' => 'cil', 'CiPaw.08G011600' => 'cil', 'CiPaw.13G032200' => 'cil', 'CiPaw.14G025600' => 'cil', 'ClCG05G016950' => 'cla', 'ClCG06G002830' => 'cla', 'ClCG06G011170' => 'cla', 'ClCG09G018060' => 'cla', 'ClCG11G003070' => 'cla', 'COL.COLO4_10344' => 'col', 'COL.COLO4_12487' => 'col', 'COL.COLO4_12945' => 'col', 'COL.COLO4_18848' => 'col', 'Cpa.g.c28082.2' => 'cpa', 'Cpa.g.sc10.253' => 'cpa', 'Cpa.g.sc259.3' => 'cpa', 'Cpa.g.sc49.149' => 'cpa', 'Cpa.g.sc75.23' => 'cpa', 'Cre02.g111650' => 'cre', 'Cre07.g325950' => 'cre', 'CsaV3_1G030190' => 'csa', 'CsaV3_2G002890' => 'csa', 'CsaV3_3G046460' => 'csa', 'CsaV3_5G038190' => 'csa', 'CsaV3_6G009000' => 'csa', 'CSS0005168' => 'camsi', 'CSS0008008' => 'camsi', 'CSS0008578' => 'camsi', 'CSS0009921' => 'camsi', 'CSS0011977' => 'camsi', 'CSS0021085' => 'camsi', 'CSS0021396' => 'camsi', 'CSS0036039' => 'camsi', 'CSS0042550' => 'camsi', 'CSS0046790' => 'camsi', 'DCAR_011082' => 'dca', 'DCAR_014884' => 'dca', 'DCAR_017812' => 'dca', 'Dinv15949' => 'din', 'Dinv18247' => 'din', 'Dinv30588' => 'din', 'Dinv33779' => 'din', 'Dinv36523' => 'din', 'Dinv41507' => 'din', 'Dinv44117' => 'din', 'Duzib138G1184' => 'dzi', 'Duzib150G0074' => 'dzi', 'Duzib150G0554' => 'dzi', 'Duzib160G0841' => 'dzi', 'Duzib168G0667' => 'dzi', 'Duzib168G1328' => 'dzi', 'Duzib187G1181' => 'dzi', 'Duzib187G1738' => 'dzi', 'Duzib192G0119' => 'dzi', 'Duzib264G0100' => 'dzi', 'ECA232G0281' => 'eca', 'ECA234G2635' => 'eca', 'ECA240G3169' => 'eca', 'ECA248G0358' => 'eca', 'EL10Ac2g03005' => 'bvu', 'EL10Ac2g03008' => 'bvu', 'EL10Ac2g03010' => 'bvu', 'EL10Ac2g03012' => 'bvu', 'EL10Ac2g04239' => 'bvu', 'EL10Ac8g18662' => 'bvu', 'Eucgr.C01177' => 'egr', 'Eucgr.C01747' => 'egr', 'Eucgr.C04220' => 'egr', 'Eucgr.D02493' => 'egr', 'Eucgr.I01961' => 'egr', 'FAN01G2560' => 'fan', 'FAN02G2876' => 'fan', 'FAN03G0034' => 'fan', 'FAN03G2554' => 'fan', 'FAN05G5805' => 'fan', 'FAN06G0345' => 'fan', 'FAN06G2402' => 'fan', 'FAN06G4858' => 'fan', 'FAN09G0843' => 'fan', 'FAN10G0582' => 'fan', 'FAN10G2783' => 'fan', 'FAN10G2842' => 'fan', 'FAN14G1530' => 'fan', 'FAN15G1733' => 'fan', 'FAN19G2688' => 'fan', 'FAN20G3160' => 'fan', 'FAN23G1336' => 'fan', 'FAN24G3318' => 'fan', 'FAN26G1087' => 'fan', 'FAN27G1733' => 'fan', 'FAN28G1791' => 'fan', 'FvH4_1g03200' => 'fve', 'FvH4_2g29180' => 'fve', 'FvH4_6g48080' => 'fve', 'FvH4_7g11060' => 'fve', 'FvH4_7g11061' => 'fve', 'Glyma.01G135500' => 'gma', 'Glyma.03G032400' => 'gma', 'Glyma.04G067400' => 'gma', 'Glyma.04G147600' => 'gma', 'Glyma.06G069000' => 'gma', 'Glyma.10G261900' => 'gma', 'Glyma.13G061700' => 'gma', 'Glyma.13G166800' => 'gma', 'Glyma.17G114700' => 'gma', 'Glyma.20G129000' => 'gma', 'Gohir.A05G016300' => 'ghi', 'Gohir.A05G125800' => 'ghi', 'Gohir.A06G098208' => 'ghi', 'Gohir.A07G035900' => 'ghi', 'Gohir.A07G206300' => 'ghi', 'Gohir.A10G074750' => 'ghi', 'Gohir.A11G078600' => 'ghi', 'Gohir.A12G094900' => 'ghi', 'Gohir.D05G017300' => 'ghi', 'Gohir.D05G126750' => 'ghi', 'Gohir.D06G099700' => 'ghi', 'Gohir.D07G039900' => 'ghi', 'Gohir.D07G039950' => 'ghi', 'Gohir.D07G212400' => 'ghi', 'Gohir.D10G076650' => 'ghi', 'Gohir.D11G083200' => 'ghi', 'Gohir.D12G097601' => 'ghi', 'Gorai.001G042100' => 'gra', 'Gorai.001G240400' => 'gra', 'Gorai.007G088800' => 'gra', 'Gorai.009G017600' => 'gra', 'Gorai.009G130800' => 'gra', 'Gorai.010G114600' => 'gra', 'Gorai.011G082600' => 'gra', 'GSVIVG01011451001' => 'vvi', 'GSVIVG01015538001' => 'vvi', 'GSVIVG01017311001' => 'vvi', 'GSVIVG01027686001' => 'vvi', 'GSVIVG01035850001' => 'vvi', 'HanXRQChr01g0030791' => 'han', 'HanXRQChr01g0030801' => 'han', 'HanXRQChr03g0093271' => 'han', 'HanXRQChr09g0242791' => 'han', 'HanXRQChr09g0264701' => 'han', 'HanXRQChr10g0315531' => 'han', 'HanXRQChr12g0356281' => 'han', 'HanXRQChr13g0422941' => 'han', 'Haze_02683' => 'cav', 'Haze_02684' => 'cav', 'Haze_14504' => 'cav', 'Haze_21527' => 'cav', 'Hma1.2p1_0000F.1_g000180' => 'hma', 'Hma1.2p1_0301F.1_g118290' => 'hma', 'Hma1.2p1_0515F.1_g170120' => 'hma', 'Hma1.2p1_2881F.1_g329820' => 'hma', 'Hma1.2p1_2918F.1_g330343' => 'hma', 'Hma1.2p1_2918F.1_g330346' => 'hma', 'HPP92_000669' => 'vpl', 'HPP92_018290' => 'vpl', 'HPP92_026308' => 'vpl', 'Hund09246' => 'sun', 'Hund15622' => 'sun', 'Hund17046' => 'sun', 'Hund26506' => 'sun', 'Lalb_Chr02g0159251' => 'lal', 'Lalb_Chr07g0190281' => 'lal', 'Lalb_Chr08g0234761' => 'lal', 'Lalb_Chr11g0072161' => 'lal', 'Lalb_Chr12g0207881' => 'lal', 'Lalb_Chr22g0361501' => 'lal', 'Lj1g0004867' => 'lja', 'Lj1g0011542' => 'lja', 'Lj2g0000428' => 'lja', 'Lj3A542T27' => 'lonja', 'Lj3g0012563' => 'lja', 'Lj4C112T4' => 'lonja', 'Lj4g0020503' => 'lja', 'Lj5C70T12' => 'lonja', 'Lj5g0018469' => 'lja', 'Lj7A537T50' => 'lonja', 'Lj7A721T56' => 'lonja', 'Lsat_1_v5_gn_1_44781' => 'lsa', 'Lsat_1_v5_gn_3_129201' => 'lsa', 'Lsat_1_v5_gn_4_169500' => 'lsa', 'Lsat_1_v5_gn_4_88940' => 'lsa', 'Lsat_1_v5_gn_5_95820' => 'lsa', 'Lsat_1_v5_gn_7_45180' => 'lsa', 'Manes.01G269100' => 'mes', 'Manes.02G048200' => 'mes', 'Manes.04G114200' => 'mes', 'Manes.05G049200' => 'mes', 'Manes.06G058401' => 'mes', 'Manes.14G132521' => 'mes', 'Manes.16G121300' => 'mes', 'Mapoly0002s0123' => 'mpo', 'MBI13_g34059_MAGBIO' => 'mbi', 'MBI18_g03889_MAGBIO' => 'mbi', 'MCO09G721' => 'mco', 'MCO14G339' => 'mco', 'MD02G1031100' => 'mdo', 'MD07G1115200' => 'mdo', 'MD09G1054300' => 'mdo', 'MD15G1124700' => 'mdo', 'MD15G1172700' => 'mdo', 'MD17G1052000' => 'mdo', 'MD17G1052100' => 'mdo', 'Medtr0262s0060' => 'mtr', 'Medtr1g012440' => 'mtr', 'Medtr3g107393' => 'mtr', 'Medtr4g027390' => 'mtr', 'Medtr4g114550' => 'mtr', 'Medtr8g077020' => 'mtr', 'MELO3C003693.2' => 'cme', 'MELO3C004504.2' => 'cme', 'MELO3C010343.2' => 'cme', 'MELO3C022004.2' => 'cme', 'MELO3C034942.2' => 'cme', 'MELO3C035233.2' => 'cme', 'Migut.B01591' => 'egut', 'Migut.E01797' => 'egut', 'Migut.H00681' => 'egut', 'Migut.K00513' => 'egut', 'Migut.K01305' => 'egut', 'MSTRG.15469' => 'ama', 'MSTRG.1720' => 'ama', 'MSTRG.20728' => 'ama', 'MSTRG.23919' => 'ama', 'MSTRG.26355' => 'ama', 'MSTRG.28176' => 'ama', 'MSTRG.28180' => 'ama', 'Nitab4.5_0000209g0010' => 'nta', 'Nitab4.5_0000447g0010' => 'nta', 'Nitab4.5_0000568g0130' => 'nta', 'Nitab4.5_0000859g0200' => 'nta', 'Nitab4.5_0001591g0240' => 'nta', 'Nitab4.5_0004054g0020' => 'nta', 'Nitab4.5_0004740g0010' => 'nta', 'Nitab4.5_0005011g0020' => 'nta', 'Nitab4.5_0007686g0010' => 'nta', 'Nitab4.5_0008963g0030' => 'nta', 'Nitab4.5_0024069g0010' => 'nta', 'Nn1g01013' => 'nnu', 'Nn4g25262' => 'nnu', 'Nn6g33970' => 'nnu', 'Nn8g39456' => 'nnu', 'Oeu000841.1' => 'oeu', 'Oeu005824.1' => 'oeu', 'Oeu007505.1' => 'oeu', 'Oeu007506.1' => 'oeu', 'Oeu010225.1' => 'oeu', 'Oeu031066.1' => 'oeu', 'Oeu032184.1' => 'oeu', 'Oeu042692.1' => 'oeu', 'Oeu062099.1' => 'oeu', 'Os02g0202200' => 'osa', 'Os03g0406100' => 'osa', 'Os03g0827500' => 'osa', 'Os06g0603600' => 'osa', 'Os07g0614700' => 'osa', 'Os10g0392600' => 'osa', 'Peaxi162Scf00062g00136' => 'pax', 'Peaxi162Scf00073g01422' => 'pax', 'Peaxi162Scf00166g01051' => 'pax', 'Peaxi162Scf00599g00052' => 'pax', 'Peaxi162Scf00629g00116' => 'pax', 'Peaxi162Scf00803g00014' => 'pax', 'Peaxi162Scf00944g00034' => 'pax', 'Peaxi162Scf01269g00014' => 'pax', 'Peaxi162Scf01296g00019' => 'pax', 'PGR004G0609' => 'pgr', 'PGR004G0872' => 'pgr', 'PGR102G1306' => 'pgr', 'PGR119G0740' => 'pgr', 'PGR142G2987' => 'pgr', 'PGSC0003DMG400001340' => 'stu', 'PGSC0003DMG400002890' => 'stu', 'PGSC0003DMG400015850' => 'stu', 'PGSC0003DMG400025135' => 'stu', 'PGSC0003DMG400026017' => 'stu', 'PGSC0003DMG400041216' => 'stu', 'Phvul.003G164900' => 'pvu', 'Phvul.004G029600' => 'pvu', 'Phvul.007G040200' => 'pvu', 'Phvul.009G197000' => 'pvu', 'Phvul.010G072000' => 'pvu', 'Potri.001G135950' => 'ptr', 'Potri.001G193200' => 'ptr', 'Potri.002G143900' => 'ptr', 'Potri.006G069500' => 'ptr', 'Potri.006G253400' => 'ptr', 'Potri.014G061400' => 'ptr', 'Potri.017G086600' => 'ptr', 'Potri.018G028200' => 'ptr', 'Potri.018G131500' => 'ptr', 'Pp3c17_13870' => 'ppa', 'Pp3c17_13877' => 'ppa', 'Pp3c1_35820' => 'ppa', 'Pp3c23_9150' => 'ppa', 'Pp3c24_4250' => 'ppa', 'Pp3c2_2750' => 'ppa', 'Pp3c8_7050' => 'ppa', 'PRCOL_00004446' => 'pco', 'Prupe.1G480200' => 'ppe', 'Prupe.2G137300' => 'ppe', 'Prupe.3G264200' => 'ppe', 'Prupe.7G243500' => 'ppe', 'Psat0s2233g0400' => 'psa', 'Psat1g024040' => 'psa', 'Psat1g071040' => 'psa', 'Psat4g033840' => 'psa', 'Psat6g029360' => 'psa', 'Psat7g235880' => 'psa', 'PSO170G1043' => 'pso', 'PSO170G3209' => 'pso', 'PSO455G0075' => 'pso', 'PSO455G0108' => 'pso', 'PSO541G0734' => 'pso', 'PSO591G0446' => 'pso', 'PSO675G7888' => 'pso', 'PSO832G0185' => 'pso', 'QL02p021904' => 'qlo', 'QL02p084755' => 'qlo', 'QL02p088543' => 'qlo', 'QL04p037577' => 'qlo', 'QL04p038202' => 'qlo', 'RcHm_v2.0_Chr1g0349081' => 'rch', 'RcHm_v2.0_Chr1g0349091' => 'rch', 'RcHm_v2.0_Chr2g0088351' => 'rch', 'RcHm_v2.0_Chr2g0167401' => 'rch', 'RcHm_v2.0_Chr6g0298031' => 'rch', 'Rhsim01G0151500' => 'rsi', 'Rhsim02G0200100' => 'rsi', 'Rhsim03G0248200' => 'rsi', 'Rhsim08G0071100' => 'rsi', 'RhsimUnG0194200' => 'rsi', 'Sabra02G0112200' => 'sbr', 'Sabra06G0051800' => 'sbr', 'Sabra06G0197900' => 'sbr', 'Sabra14G0045200' => 'sbr', 'Sabra17G0076400' => 'sbr', 'Sabra17G0076500' => 'sbr', 'Sabra18G0030500' => 'sbr', 'Sabra18G0111500' => 'sbr', 'SalBow1G0301' => 'sbo', 'SalBow1G0550' => 'sbo', 'SalBow1G2168' => 'sbo', 'SalBow1G3744' => 'sbo', 'SalBow1G4008' => 'sbo', 'SalBow2G1126' => 'sbo', 'SalBow5G1390' => 'sbo', 'SalBow6G0267' => 'sbo', 'SalBow7G1505' => 'sbo', 'SalBow8G2858' => 'sbo', 'Sc08g0006580' => 'sci', 'Sc11g0003410' => 'sci', 'Sc11g0004980' => 'sci', 'Sc14g0000210' => 'sci', 'Sc23g0003770' => 'sci', 'Sed0007501' => 'sed', 'Sed0013733' => 'sed', 'Sed0013739' => 'sed', 'Sed0014637' => 'sed', 'Sed0021160' => 'sed', 'Sed0027758' => 'sed', 'SEGI_03966' => 'sgi', 'SEGI_28914' => 'sgi', 'SEGI_31763' => 'sgi', 'SEGI_33513' => 'sgi', 'SEGI_39410' => 'sgi', 'SGA_v2.0_scaffold163G37981' => 'sas', 'SGA_v2.0_scaffold169G38731' => 'sas', 'SGA_v2.0_scaffold30G12550' => 'sas', 'SGA_v2.0_scaffold413G51178' => 'sas', 'SGA_v2.0_scaffold43G16516' => 'sas', 'SHI03394' => 'shi', 'SHI03395' => 'shi', 'SMO128G0009' => 'smo', 'SMO167G0081' => 'smo', 'SMO307G0024' => 'smo', 'SMO347G0578' => 'smo', 'SMO351G0026' => 'smo', 'Solyc01g090890.3' => 'sly', 'Solyc02g067160.4' => 'sly', 'Solyc02g088210.3' => 'sly', 'Solyc08g060920.4' => 'sly', 'Solyc12g009480.2' => 'sly', 'Sopen01g036630' => 'spe', 'Sopen02g016330' => 'spe', 'Sopen02g032900' => 'spe', 'Sopen08g016030' => 'spe', 'Sopen12g004480' => 'spe', 'Sp4g09230' => 'spa', 'Sp4g27190' => 'spa', 'Sp6g24260' => 'spa', 'Sp6g28730' => 'spa', 'TAR383G0728' => 'tar', 'TAR625G0302' => 'tar', 'TAR629G3511' => 'tar', 'TAR636G1295' => 'tar', 'TAR636G1938' => 'tar', 'TAR636G2835' => 'tar', 'THA.LOC104802468' => 'tha', 'THA.LOC104808986' => 'tha', 'THA.LOC104811034' => 'tha', 'THA.LOC104821016' => 'tha', 'Thecc.01G382900' => 'tca', 'Thecc.04G086700' => 'tca', 'Thecc.06G021300' => 'tca', 'Thecc.09G026200' => 'tca', 'Thecc.09G126900' => 'tca', 'Thhalv10014185m.g' => 'esa', 'Thhalv10014356m.g' => 'esa', 'Thhalv10016985m.g' => 'esa', 'Thhalv10023655m.g' => 'esa', 'TPR.G15682' => 'tpr', 'TPR.G26496' => 'tpr', 'TPR.G31373' => 'tpr', 'TPR.G3151' => 'tpr', 'TPR.G39086' => 'tpr', 'TPR.G4944' => 'tpr', 'TPR.G8811' => 'tpr', 'TWI18G1446' => 'twi', 'TWI23G0853' => 'twi', 'TWI32G0834' => 'twi', 'TWI34G0176' => 'twi', 'TWI34G0458' => 'twi', 'TWI34G1524' => 'twi', 'TWI63G0891' => 'twi', 'unitig_26.g8887' => 'ugi', 'unitig_46.g18403' => 'ugi', 'unitig_736.g22280' => 'ugi', 'unitig_899.g15092' => 'ugi', 'vmacro06132' => 'vma', 'vmacro11159' => 'vma', 'vmacro18180' => 'vma', 'vmacro20561' => 'vma', 'vmacro21031' => 'vma', 'vmacro21032' => 'vma', 'VMungo0331G0316' => 'vmu', 'VMungo0464G0134' => 'vmu', 'VMungo0720G0838' => 'vmu', 'VMungo1215G2067' => 'vmu', 'VMungo1309G2460' => 'vmu', 'Zm00001eb048730' => 'zma', 'Zm00001eb063280' => 'zma', 'Zm00001eb162710' => 'zma', 'Zm00001eb386270' => 'zma' ) $gf_id = 'HOM05D001052' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001052' ) $data_identifier = 'HOM05D001052' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 10, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 5, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 3, 'din' => (int) 7, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 5, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 8, 'sbo' => (int) 10, 'sci' => (int) 5, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb386270' $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